genome.fa.s9.2.7.7.80.10.50.1000.28.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   

This is table  28  of  97  ( 11551 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11832542--11832622	31	2.6	31	90	0	126	24	19	18	37	1.94
11834034--11834299	145	1.8	145	90	1	426	30	22	19	28	1.98
11834034--11834364	145	2.3	143	84	5	398	31	21	17	29	1.96
11836416--11836897	118	4.1	118	84	0	590	27	28	19	24	1.99
11836416--11836897	236	2.0	235	86	1	660	27	28	19	24	1.99
11843794--11843933	31	4.5	31	88	0	199	37	18	15	27	1.91
11844266--11844389	63	2.0	63	93	0	212	33	11	33	21	1.89
11844348--11844389	9	4.7	9	81	0	57	35	4	38	21	1.75
11865260--11865343	34	2.5	34	80	7	91	29	25	4	40	1.76
11866909--11866946	18	2.1	18	85	9	51	5	28	0	65	1.14
11873470--11873518	25	2.0	25	95	0	89	28	14	10	46	1.77
11874646--11874711	29	2.3	29	86	5	89	46	13	12	27	1.78
11874637--11874704	29	2.5	27	75	15	68	51	11	11	25	1.72
11874655--11874718	29	2.2	28	83	8	83	46	10	14	28	1.77
11874575--11874819	129	1.9	131	80	8	295	42	11	13	31	1.80
11874675--11874910	101	2.3	100	79	8	257	44	12	13	29	1.81
11874877--11874952	28	2.7	29	79	4	82	44	10	14	30	1.79
11874775--11875010	128	1.8	129	81	3	296	41	12	14	30	1.83
11883147--11883183	17	2.2	17	90	0	56	24	24	35	16	1.95
11953265--11953289	7	3.6	7	100	0	50	12	0	0	88	0.53
11955027--11955069	17	2.7	15	82	10	50	25	0	11	62	1.29
11955066--11955104	20	1.9	21	89	5	62	20	5	7	66	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11961544--11961581	19	2.0	19	89	0	58	39	28	2	28	1.70
11962000--11962081	42	2.0	42	92	0	137	26	35	17	20	1.95
11969429--11969468	21	1.9	21	89	0	62	50	2	5	42	1.37
11969738--11969769	15	2.1	15	94	0	55	43	0	3	53	1.16
11969689--11969856	84	2.0	85	91	3	277	41	1	7	49	1.41
11979323--11979444	42	2.9	41	80	3	136	22	20	31	25	1.98
11979485--11979521	2	18.5	2	94	0	65	48	2	0	48	1.15
11983656--11983770	37	3.1	37	97	0	212	24	38	8	28	1.85
11984592--11984632	21	2.0	21	85	0	55	46	9	26	17	1.79
11985065--11985114	15	3.2	15	80	5	55	68	0	8	24	1.16
11985921--11985990	27	2.6	27	97	0	131	34	11	10	44	1.74
11990922--11990946	2	12.5	2	100	0	50	52	0	0	48	1.00
11994679--11994724	24	1.9	24	86	8	67	21	13	2	63	1.40
11995743--11995794	2	26.0	2	100	0	104	50	0	0	50	1.00
12000381--12000460	40	2.0	40	92	4	135	41	21	11	26	1.86
12000589--12000735	61	2.4	61	79	2	163	23	29	16	30	1.96
12002344--12002518	31	5.7	29	75	12	127	24	15	5	55	1.60
12002400--12002482	30	2.7	31	87	7	116	20	13	6	60	1.54
12002344--12002517	61	2.8	61	76	9	167	24	14	5	55	1.60
12007899--12008047	71	2.1	71	88	2	219	28	24	10	36	1.88
12014683--12014737	22	2.5	22	96	0	101	30	18	16	34	1.93
12016270--12016329	3	20.0	3	83	6	77	65	0	3	31	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12016996--12017038	11	3.7	11	81	9	50	65	0	6	27	1.18
12024996--12025042	22	2.1	23	84	11	62	29	6	14	48	1.69
12029080--12029140	19	3.2	18	77	9	59	21	3	8	67	1.32
12029090--12029141	25	2.1	25	82	7	61	21	3	3	71	1.18
12030496--12030533	20	1.9	20	100	0	76	28	5	21	44	1.73
12032860--12032896	14	2.5	15	84	16	51	24	8	18	48	1.75
12032860--12032897	15	2.6	15	88	12	53	26	7	18	47	1.76
12045984--12046063	8	9.2	8	76	15	79	20	2	0	77	0.88
12045985--12046064	27	2.8	29	83	11	94	21	2	0	76	0.91
12045987--12046073	21	4.0	21	78	20	81	21	3	0	74	0.96
12045985--12046064	34	2.4	32	86	12	101	21	2	0	76	0.91
12045986--12046064	9	9.0	9	78	21	64	21	2	0	75	0.91
12046018--12046072	18	3.2	17	76	19	60	25	1	0	72	0.94
12061504--12061562	14	4.1	14	91	4	100	55	20	1	22	1.52
12061504--12061562	29	2.1	28	93	3	100	55	20	1	22	1.52
12066458--12066490	15	2.1	16	88	5	50	75	0	15	9	1.03
12067727--12067774	21	2.3	21	85	0	60	33	27	8	31	1.86
12067857--12067896	21	1.9	21	89	0	62	42	27	5	25	1.75
12067853--12067918	21	3.1	21	75	2	60	36	27	6	30	1.81
12067683--12067972	144	2.0	144	83	2	368	32	22	10	34	1.89
12068062--12068135	21	3.5	21	88	0	103	32	25	9	32	1.88
12068491--12068527	10	3.9	10	79	13	51	18	8	0	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12068496--12068530	18	1.9	18	100	0	70	17	8	0	74	1.06
12073650--12073692	18	2.5	17	82	17	54	67	0	6	25	1.15
12073650--12073687	9	4.3	9	90	9	53	65	0	7	26	1.19
12088880--12088953	29	2.5	31	82	10	100	27	9	20	43	1.82
12095801--12095887	42	2.1	42	88	0	129	21	33	17	27	1.96
12103210--12103312	38	2.6	39	87	6	147	19	15	39	25	1.91
12105999--12106052	20	2.8	19	80	8	56	57	12	0	29	1.36
12107223--12107257	18	1.9	18	100	0	70	34	37	0	28	1.58
12125585--12125633	16	2.9	17	84	6	73	28	18	26	26	1.98
12125585--12125625	17	2.5	17	92	4	66	29	17	26	26	1.97
12132867--12132930	29	2.3	29	83	5	78	42	10	10	35	1.75
12133029--12133167	45	3.0	43	79	12	134	22	19	21	36	1.95
12133053--12133198	24	6.2	24	77	7	156	21	19	21	37	1.94
12133072--12133271	69	2.9	69	87	0	274	26	19	19	35	1.95
12140416--12140576	73	2.2	73	81	6	184	20	19	18	41	1.90
12150361--12150484	43	2.9	42	81	2	140	22	37	16	24	1.94
12152702--12152797	30	3.3	30	81	5	117	32	11	27	29	1.91
12152701--12152812	60	1.9	58	85	10	156	34	12	24	28	1.92
12152718--12152812	30	3.2	28	75	11	93	36	12	24	26	1.91
12156986--12157184	100	2.0	99	95	0	353	31	14	20	33	1.93
12158788--12158957	84	2.0	84	98	0	331	25	10	24	39	1.87
12166579--12166618	20	2.0	21	90	5	64	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12172830--12172875	20	2.3	20	96	0	83	45	21	4	28	1.71
12173224--12173330	36	3.2	32	72	13	90	35	27	12	25	1.91
12173919--12173964	21	2.2	21	84	0	56	60	8	4	26	1.44
12174015--12174101	22	4.0	22	80	4	70	54	13	3	28	1.56
12174015--12174101	43	2.0	43	86	4	122	54	13	3	28	1.56
12174012--12174130	21	5.6	21	77	5	105	49	15	5	28	1.68
12184143--12184182	20	2.0	20	90	0	62	17	37	7	37	1.78
12192153--12192204	21	2.5	21	84	6	61	51	15	3	28	1.60
12192249--12192312	21	2.9	22	81	6	67	53	9	4	32	1.54
12192249--12192335	44	2.0	44	86	4	122	52	12	4	29	1.59
12192277--12192372	21	4.5	21	84	2	102	51	17	7	23	1.71
12193785--12193845	26	2.3	26	94	0	104	32	39	1	26	1.66
12193855--12194016	86	1.9	86	87	2	236	22	36	17	22	1.95
12193855--12194016	43	3.8	43	83	4	202	22	36	17	22	1.95
12197146--12197198	21	2.5	21	93	0	88	18	32	16	32	1.94
12197418--12197478	26	2.3	26	97	0	113	32	40	1	24	1.65
12197488--12197640	43	3.6	42	82	4	180	23	34	16	25	1.95
12201845--12201894	19	2.6	19	78	12	66	50	8	34	8	1.61
12212888--12213103	55	3.9	55	86	0	306	21	13	36	27	1.92
12212895--12212982	28	3.2	28	67	20	76	20	15	38	25	1.92
12212850--12213097	110	2.3	107	86	4	322	22	13	36	27	1.91
12218854--12218926	32	2.3	32	83	4	85	26	15	32	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12226305--12226347	14	2.9	15	82	6	52	62	0	0	37	0.95
12226876--12226925	2	24.5	2	83	4	55	44	4	6	46	1.47
12228374--12228734	181	2.0	181	91	3	584	34	15	9	40	1.79
12230456--12230515	26	2.3	27	85	8	79	75	5	5	15	1.15
12233243--12233304	26	2.4	26	88	0	97	32	40	4	22	1.75
12233495--12233617	42	2.9	42	87	0	174	22	30	21	25	1.99
12246021--12246167	53	2.8	53	82	2	161	28	13	24	33	1.93
12253548--12253585	20	2.0	20	94	5	69	21	26	15	36	1.93
12259166--12259275	42	2.6	42	86	1	139	26	18	32	22	1.97
12259790--12259826	19	1.9	19	88	0	56	29	27	21	21	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97